PXD048675

PXD048675 is an original dataset announced via ProteomeXchange.

Title	Proteomic Profiling of Neutrophils and Plasma in Community-Acquired Pneumonia Reveals Crucial Proteins in Diverse Biological Pathways Linked to Clinical Outcome
Description	Neutrophils are crucial first responders in respiratory infections and play a dichotomous role in the host response during community-acquired pneumonia (CAP): providing protection and potentially causing damage. Existing research on neutrophil function in CAP relies on animal or ex-vivo studies, leaving a gap in human-centered investigations. Addressing this, we used mass spectrometry to characterize the neutrophil proteome of CAP patients at general ward admission and related the proteome to controls and clinical outcomes. We included 57 CAP patients and 26 controls and quantified 3482 proteins in neutrophil lysates and 386 proteins in concurrently collected plasma. We found that the extensively studied granule-related proteins in non-human models did not drive the neutrophil proteome changes associated with CAP. Proteome alterations were primarily due to an increased abundance of proteins related to (aerobic) metabolic activity and (m)RNA translation/processing, concurrent with a diminished presence of cytoskeletal organization-related proteins (all pathways p<0.001). Higher and lower abundances of specific proteins, primarily constituents of these pathways, were associated with prolonged time to clinical stability in CAP. Moreover, we identified a pronounced presence of platelet-related proteins in neutrophil lysates of particularly viral CAP patients, suggesting the existence of neutrophil-platelet complexes in non-critically ill CAP patients. Of the measured proteins in neutrophils, 4.3% were also detected in plasma. Our findings offer novel insights into the neutrophil proteome in human CAP and might serve as a proteomic resource for forthcoming investigations. Additionally, our study could pave the way for targeted strategies to fine-tune neutrophil responses, potentially improving CAP patient management.
HostingRepository	PRIDE
AnnounceDate	2024-10-01
AnnouncementXML	Submission_2024-10-01_08:20:17.640.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Arie Hoogendijk
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2024-01-18 03:56:51	ID requested
⏵ 1	2024-10-01 08:20:18	announced

10.3389/FIMMU.2024.1470383;

submitter keyword: Plasma, human, pneumonia, neutrophils, CAP

Arie Johan
contact affiliation	Sanquin Research
contact email	a.hoogendijk@sanquin.nl
lab head
Arie Hoogendijk
contact affiliation	Sanquin Research, Amsterdam
contact email	a.hoogendijk@sanquin.nl
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2024/10/PXD048675

PRIDE project URI

• PRIDE
  1. PXD048675
     1. Label: PRIDE project
     2. Name: Proteomic Profiling of Neutrophils and Plasma in Community-Acquired Pneumonia Reveals Crucial Proteins in Diverse Biological Pathways Linked to Clinical Outcome